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- EMDB-63853: Structure of the intial complex in filament assembly at 3.23 angs... -

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Basic information

Entry
Database: EMDB / ID: EMD-63853
TitleStructure of the intial complex in filament assembly at 3.23 angstroms resolution, conformation 2.
Map data
Sample
  • Organelle or cellular component: Intial complex in filament assembly
    • Protein or peptide: Flagellar hook-associated protein 2
    • Protein or peptide: Flagellar hook-associated protein 2
    • Protein or peptide: Flagellar hook-associated protein 3
    • Protein or peptide: Flagellar hook-associated protein 1
    • Protein or peptide: Flagellar hook protein FlgE
Keywordsflagellum / filament assembly / intial complex / fibril / PROTEIN FIBRIL
Function / homology
Function and homology information


bacterial-type flagellum filament cap / bacterial-type flagellum hook / bacterial-type flagellum basal body / bacterial-type flagellum-dependent swarming motility / bacterial-type flagellum / bacterial-type flagellum assembly / bacterial-type flagellum-dependent cell motility / cell adhesion / structural molecule activity / extracellular region / cytosol
Similarity search - Function
: / Flagellar hook-associated protein 1, D2-like domain / Flagellar hook-associated protein 1 / : / Flagellar hook-associated protein FlgK helical domain / Flagellar hook-associated protein 3 / Flagellar hook-associated protein 2, N-terminal / Flagellar hook-associated protein 2, C-terminal / Flagellar hook-associated protein 2 / Flagellar hook-associated protein 2 N-terminus ...: / Flagellar hook-associated protein 1, D2-like domain / Flagellar hook-associated protein 1 / : / Flagellar hook-associated protein FlgK helical domain / Flagellar hook-associated protein 3 / Flagellar hook-associated protein 2, N-terminal / Flagellar hook-associated protein 2, C-terminal / Flagellar hook-associated protein 2 / Flagellar hook-associated protein 2 N-terminus / Flagellar hook-associated protein 2 C-terminus / Flagellin hook, IN motif / Flagellin hook IN motif / Flagellar hook protein FlgE superfamily / Flagellar hook protein FlgE / Flagellar basal body protein FlaE D2 domain / Flagellar hook-basal body protein, FlgE/F/G / Flagellar hook-basal body protein, FlgE/F/G-like / : / Flagellar hook protein FlgE/F/G D1 domain / Flagellar basal body rod protein, conserved site / Flagella basal body rod proteins signature. / Flagellar basal body rod protein, N-terminal / Flagellar basal-body/hook protein, C-terminal domain / Flagella basal body rod protein / Flagellar basal body rod FlgEFG protein C-terminal / Flagellin / Flagellin, N-terminal domain / Bacterial flagellin N-terminal helical region
Similarity search - Domain/homology
Flagellar hook protein FlgE / Flagellar hook-associated protein 1 / Flagellar hook-associated protein 3 / Flagellar hook-associated protein 2
Similarity search - Component
Biological speciesSalmonella enterica subsp. enterica serovar Typhimurium str. LT2 (bacteria)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.23 Å
AuthorsChen LX / Jiang WX / Cheng XQ / Dong X / Xing Q
Funding support China, 2 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)32371277 China
National Natural Science Foundation of China (NSFC)32301028 China
CitationJournal: To Be Published
Title: Structure of the intial complex in filament assembly at 3.23 angstroms resolution, conformation 2.
Authors: Chen LX / Jiang WX / Cheng XQ / Dong X / Xing Q
History
DepositionMar 20, 2025-
Header (metadata) releaseMar 25, 2026-
Map releaseMar 25, 2026-
UpdateMar 25, 2026-
Current statusMar 25, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_63853.png

Downloads & links

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Map

FileDownload / File: emd_63853.map.gz / Format: CCP4 / Size: 824 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.85 Å/pix.
x 600 pix.
= 510. Å		0.85 Å/pix.
x 600 pix.
= 510. Å		0.85 Å/pix.
x 600 pix.
= 510. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.85 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.05
Minimum - Maximum-0.51892906 - 0.92421126
Average (Standard dev.)0.00081965025 (±0.034722574)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions600600600
Spacing600600600
CellA=B=C: 510.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Mask #1

Fileemd_63853_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_63853_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_63853_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Intial complex in filament assembly

EntireName: Intial complex in filament assembly
Components
  • Organelle or cellular component: Intial complex in filament assembly
    • Protein or peptide: Flagellar hook-associated protein 2
    • Protein or peptide: Flagellar hook-associated protein 2
    • Protein or peptide: Flagellar hook-associated protein 3
    • Protein or peptide: Flagellar hook-associated protein 1
    • Protein or peptide: Flagellar hook protein FlgE

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Supramolecule #1: Intial complex in filament assembly

SupramoleculeName: Intial complex in filament assembly / type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (bacteria)

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Macromolecule #1: Flagellar hook-associated protein 2

MacromoleculeName: Flagellar hook-associated protein 2 / type: protein_or_peptide / ID: 1 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (bacteria)
Molecular weightTheoretical: 49.887594 KDa
SequenceString: MASISSLGVG SNLPLDQLLT DLTKNEKGRL TPITKQQSAN SAKLTAYGTL KSALEKFQTA NTALNKADLF KSTVASSTTE DLKVSTTAG AAAGTYKINV TQLAAAQSLA TKTTFATTKE QLGDTSVTSR TIKIEQPGRK EPLEIKLDKG DTSMEAIRDA I NDADSGIA ...String:
MASISSLGVG SNLPLDQLLT DLTKNEKGRL TPITKQQSAN SAKLTAYGTL KSALEKFQTA NTALNKADLF KSTVASSTTE DLKVSTTAG AAAGTYKINV TQLAAAQSLA TKTTFATTKE QLGDTSVTSR TIKIEQPGRK EPLEIKLDKG DTSMEAIRDA I NDADSGIA ASIVKVKENE FQLVLTANSG TDNTMKITVE GDTKLNDLLA YDSTTNTGNM QELVKAENAK LNVNGIDIER QS NTVTDAP QGITLTLTKK VTDATVTVTK DDTKAKEAIK SWVDAYNSLV DTFSSLTKYT AVEPGEEASD KNGALLGDSV VRT IQTGIR AQFANSGSNS AFKTMAEIGI TQDGTSGKLK IDDDKLTKVL KDNTAAAREL LVGDGKETGI TTKIATEVKS YLAD DGIID NAQDNVNATL KSLTKQYLSV SNSIDETVAR YKAQFTQLDT MMSKLNNTSS YLTQQFTAMN KS

UniProtKB: Flagellar hook-associated protein 2

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Macromolecule #2: Flagellar hook-associated protein 2

MacromoleculeName: Flagellar hook-associated protein 2 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (bacteria)
Molecular weightTheoretical: 49.871594 KDa
SequenceString: MASISSLGVG SNLPLDQLLT DLTKNEKGRL TPITKQQSAN SAKLTAFGTL KSALEKFQTA NTALNKADLF KSTVASSTTE DLKVSTTAG AAAGTYKINV TQLAAAQSLA TKTTFATTKE QLGDTSVTSR TIKIEQPGRK EPLEIKLDKG DTSMEAIRDA I NDADSGIA ...String:
MASISSLGVG SNLPLDQLLT DLTKNEKGRL TPITKQQSAN SAKLTAFGTL KSALEKFQTA NTALNKADLF KSTVASSTTE DLKVSTTAG AAAGTYKINV TQLAAAQSLA TKTTFATTKE QLGDTSVTSR TIKIEQPGRK EPLEIKLDKG DTSMEAIRDA I NDADSGIA ASIVKVKENE FQLVLTANSG TDNTMKITVE GDTKLNDLLA YDSTTNTGNM QELVKAENAK LNVNGIDIER QS NTVTDAP QGITLTLTKK VTDATVTVTK DDTKAKEAIK SWVDAYNSLV DTFSSLTKYT AVEPGEEASD KNGALLGDSV VRT IQTGIR AQFANSGSNS AFKTMAEIGI TQDGTSGKLK IDDDKLTKVL KDNTAAAREL LVGDGKETGI TTKIATEVKS YLAD DGIID NAQDNVNATL KSLTKQYLSV SNSIDETVAR YKAQFTQLDT MMSKLNNTSS YLTQQFTAMN KS

UniProtKB: Flagellar hook-associated protein 2

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Macromolecule #3: Flagellar hook-associated protein 3

MacromoleculeName: Flagellar hook-associated protein 3 / type: protein_or_peptide / ID: 3 / Number of copies: 13 / Enantiomer: LEVO
Source (natural)Organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (bacteria)
Molecular weightTheoretical: 34.201965 KDa
SequenceString: MRISTQMMYE QNMSGITNSQ AEWMKLGEQM STGKRVTNPS DDPIAASQAV VLSQAQAQNS QYALARTFAT QKVSLEESVL SQVTTAIQT AQEKIVYAGN GTLSDDDRAS LATDLQGIRD QLMNLANSTD GNGRYIFAGY KTEAAPFDQA TGGYHGGEKS V TQQVDSAR ...String:
MRISTQMMYE QNMSGITNSQ AEWMKLGEQM STGKRVTNPS DDPIAASQAV VLSQAQAQNS QYALARTFAT QKVSLEESVL SQVTTAIQT AQEKIVYAGN GTLSDDDRAS LATDLQGIRD QLMNLANSTD GNGRYIFAGY KTEAAPFDQA TGGYHGGEKS V TQQVDSAR TMVIGHTGAQ IFNSITSNAV PEPDGSDSEK NLFVMLDTAI AALKTPVEGN NVEKEKAAAA IDKTNRGLKN SL NNVLTVR AELGTQLSEL STLDSLGSDR ALGQKLQMSN LVDVDWNSVI SSYVMQQAAL QASYKTFTDM QGMSLFQLNR

UniProtKB: Flagellar hook-associated protein 3

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Macromolecule #4: Flagellar hook-associated protein 1

MacromoleculeName: Flagellar hook-associated protein 1 / type: protein_or_peptide / ID: 4 / Number of copies: 11 / Enantiomer: LEVO
Source (natural)Organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (bacteria)
Molecular weightTheoretical: 59.153781 KDa
SequenceString: MSSLINHAMS GLNAAQAALN TVSNNINNYN VAGYTRQTTI LAQANSTLGA GGWIGNGVYV SGVQREYDAF ITNQLRGAQN QSSGLTTRY EQMSKIDNLL ADKSSSLSGS LQSFFTSLQT LVSNAEDPAA RQALIGKAEG LVNQFKTTDQ YLRDQDKQVN I AIGSSVAQ ...String:
MSSLINHAMS GLNAAQAALN TVSNNINNYN VAGYTRQTTI LAQANSTLGA GGWIGNGVYV SGVQREYDAF ITNQLRGAQN QSSGLTTRY EQMSKIDNLL ADKSSSLSGS LQSFFTSLQT LVSNAEDPAA RQALIGKAEG LVNQFKTTDQ YLRDQDKQVN I AIGSSVAQ INNYAKQIAN LNDQISRMTG VGAGASPNDL LDQRDQLVSE LNKIVGVEVS VQDGGTYNLT MANGYTLVQG ST ARQLAAV PSSADPTRTT VAYVDEAAGN IEIPEKLLNT GSLGGLLTFR SQDLDQTRNT LGQLALAFAD AFNAQHTKGY DAD GNKGKD FFSIGSPVVY SNSNNADKTV SLTAKVVDST KVQATDYKIV FDGTDWQVTR TADNTTFTAT KDADGKLEID GLKV TVGTG AQKNDSFLLK PVSNAIVDMN VKVTNEAEIA MASESKLDPD VDTGDSDNRN GQALLDLQNS NVVGGNKTFN DAYAT LVSD VGNKTSTLKT SSTTQANVVK QLYKQQQSVS GVNLDEEYGN LQRYQQYYLA NAQVLQTANA LFDALLNIR

UniProtKB: Flagellar hook-associated protein 1

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Macromolecule #5: Flagellar hook protein FlgE

MacromoleculeName: Flagellar hook protein FlgE / type: protein_or_peptide / ID: 5 / Number of copies: 44 / Enantiomer: LEVO
Source (natural)Organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (bacteria)
Molecular weightTheoretical: 42.233152 KDa
SequenceString: MSFSQAVSGL NAAATNLDVI GNNIANSATY GFKSGTASFA DMFAGSKVGL GVKVAGITQD FTDGTTTNTG RGLDVAISQN GFFRLVDSN GSVFYSRNGQ FKLDENRNLV NMQGMQLTGY PATGTPPTIQ QGANPAPITI PNTLMAAKST TTASMQINLN S TDPVPSKT ...String:
MSFSQAVSGL NAAATNLDVI GNNIANSATY GFKSGTASFA DMFAGSKVGL GVKVAGITQD FTDGTTTNTG RGLDVAISQN GFFRLVDSN GSVFYSRNGQ FKLDENRNLV NMQGMQLTGY PATGTPPTIQ QGANPAPITI PNTLMAAKST TTASMQINLN S TDPVPSKT PFSVSDADSY NKKGTVTVYD SQGNAHDMNV YFVKTKDNEW AVYTHDSSDP AATAPTTAST TLKFNENGIL ES GGTVNIT TGTINGATAA TFSLSFLNSM QQNTGANNIV ATNQNGYKPG DLVSYQINND GTVVGNYSNE QEQVLGQIVL ANF ANNEGL ASQGDNVWAA TQASGVALLG TAGSGNFGKL TNGALEASNV DLSKELVNMI VAQRNYQSNA QTIKTQDQIL NTLV NLR

UniProtKB: Flagellar hook protein FlgE

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation statefilament

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Sample preparation

BufferpH: 7.4
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeFEI TALOS ARCTICA
Image recordingFilm or detector model: GATAN K3 (6k x 4k) / Average electron dose: 30.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Talos Arctica / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.23 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 254124
Initial angle assignmentType: NOT APPLICABLE
Final angle assignmentType: NOT APPLICABLE
FSC plot (resolution estimation)

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